BtaINT0103611 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009017 | NR5A1
Description
Bos taurus nuclear receptor subfamily 5, group A, member 1 (NR5A1), mRNA. [Source:RefSeq mRNA;Acc:NM_174403]
Coordinates
chr11:95534689-95538847:-
Coord C1 exon
chr11:95538746-95538847
Coord A exon
chr11:95534806-95538745
Coord C2 exon
chr11:95534689-95534805
Length
3940 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
AACCTCTCCTCCTTCCACAGGCG
3' ss Score
10.37
Exon sequences
Seq C1 exon
CCCACGGTCACCACCGCCCCACCTGGGCCACTGGAGCTTCCCCTCGGACCCCCGGTGCCCACTGGCCACCCTCATCCAGCGTGTGAGCTCGCCTTCTGCTCC
Seq A exon
GTAAGTGAGGGCCTGGGCCCAGGCCTCTAATGGCCAGCCTCCCTCCTCAGTGCCTCCCTGCGGCCTGGGCCGGCCACTGCCTGCTCTGCTGAGTGACTGGTGCCCGCTCCTCTGGGCAGGAAAGGGGCCGGGGATCTCCCCAGACCTGCCCTCCTACCACACTACCCCTTCTTTTCCCTGGCTGGCTGTTGGGAGGAGCTGGGCCTACGGGGATCTGTGGGGTGTCCTGCTGTCCCCGGGTGGCCGGGTGTCCCCAGGACTGCGTTGGCCCAAGCCTCATAGCCTGGATGTACGTCCATGGTCCCTGGGTCTGTCTTTGGTCTCTCTGCGTCTCCCTGCCTGTGACTCTGTGCTGTCTCTGCGGATGTCTCTGAGTCTCTGTGTGGATTCAGTCGTCTGTCTCTAGTATCCATCTGTCAGTCCCAGTTCTGGGTTCTGTGGCTGGGCCAGGTCTGAATTTGCTTCCCTGGGTAGGTGGGTGAGGGGCTGTGATTCCCCAGCTAGAACCTGGGGCTGTGAGGAGTGGGTGCAATGAAGCCTGGAGGGTCAACACAAGGGCTCCCAGCCAGTGACCGTGGAACCTCTGGGAGAGGGGATCTAAGGGGAAGGGGAAGGAGAGAACTGGCTCAGAGCCCAGGCCCCACCCCACCTGGGTCCCCAGCTCAGGCCTGTGCTTACACTGCCTGAGTCCTGCTCAACAAGGTCTAGGAGACCCCCGTGGGCTCCATCCCAGAGGAGCTGACGGGATTCCCCAGCCCAGCCCTCCCCCTCAACCCCCTTCCCTCTCTGCTGCTCCTGGTTGCCACTTTCTGAGGGCCCCTCCCTGACCGTTGAGTGGCAGCGGCCCCCACGCCCCAGCTCCTGCAGACACTCTGGTTTCTCAGGGGTTTAGGGTAGCGGGTGGAGAGGTCTGCAATAACGCTCTTTCCTCCCTCCTCACCAAGACCGGTCCATGGACTCCCACGGAAACCACAGACTCTCTTCTGTAGGGCCTACCTTTTCCATTTTATATATGGAGAAATTGAGGCTCAGAGAAGCCAAGTGACCTGTCCGAGCTTGCCTCACAAGTCGGCCGCAGCATCTGTCCTTCATCAGCTGGGTGAGCGAGAAGGGAGGTGGTCTGCGTGGTGTCTTGAGGCCTTGGCTCGCAGGACCAAGGCGCCAGCTCCAGCTAAAGCCAGAGGCCTCGGGGCACAGGCCCAGACGAAGCTGACCGCAGCCAAGGGTCTGAGCCTTCACATTTGAGCCTTTTGGGCGGCTGCGAAGCTGCAAATGCCTAATTGTGGTATTTGCCCGCTTGAAGATCATGCCTTTTTGGCTTCGTTGTTTGCAACACTTTCTTGGACCCTAGGTGCCCCGAGGGGGCAGGGGCAGGATGCAAGCGGGCACCTTCCTCTTTCAGGTCTCAATTTTTTACATTTGAAAAATGAGAGTGACTGAATAGATTCCCCCCACCCCCACCCCCTCCAGCTCAGAGCAATGGCTCAGCCCTTCGGCTCGAGGTCCCTAGGACACTTTTGTTCCTAGGGCTGCCGGGCACTCTCTTGCCCTGCTCCCAGCCCAAGTAAGAGCGCAGAACTGGACTGGAGAGAGATTTCTCCTGCCCCTGGGTTCTATTCTCCCAGCTCCCACGCCCTCGGTGGTTTTGAGTCCTCACCAGACCTCGGAAAACTCTCAGGGTGAAATTACTACGACTCCCATTTCCAGCCAAGCAAACCGAAGCTCAAGGAGAAGAATTTGACCCAGATCTCCCATCTGGATGCTTTCAGCGATTCCGCAGTGCCAGGCGTGTGTTTTGCCAACACTGCTTCCGTTCATCCGCACGGCCACCCTTAAAGTCCAGGCATCACTCCCACTTTACGGATGAGGAAACTAGGGCTGGGAGATTTGCTTAAATCTCCATTGAGAAAACGTGCCTGGGTGGGGGTGGGGTGGGGACTCAGTTTCTAGCCTTGAGCCGGTATCTTGGCCATGGTCCCCTACGTTTGCCCTACCTGTTTCCATGCTGCAAAACGGCCAGCGCCCCCAGCGTGGCCCTCACCAAGACTAAGCAGGATTTGCAAACAGGGACTCGCCTCCTTTCACCACAGGAGGGTGGCCCAAGGCTCCCAGGCGCCCAGCACCTGCTCAGATTCCCGGGCGCCCGGGCTCCGGGGGCCGGGATGGGGATGGGAGTCCGAGACGGTGAGAGGAAAGACACGAACCCGTCTCGGTGGCGTTGGAGGGCGCGGGCCGGGCCTCCGCCCCCGAATACCGCAAGAGCCCATATAGAGGGGCCGGCCCTTGGTCTCGGCGCGGCGGGTTCGCGCAGCGCGCACTGGCAGTGGAGGGGCCCGGGTCCCAGGTGCGCCTCGGAGCGGCCCTGGAGGCGGCGGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCGCGGTGGCCGGACGCGGGGCGCTGCTGCTCCCAGGAGCCGCCAGGTGGGCGCCGGGCGGGCTGTAGCCGCCGTCGCGCCCCTTTGCGCTGGCCGGATCCATCGAGGCTCCGCGCGCTTCCCTCCTGGGGACTTCGACTCTCCGCCCGAGGTCGCTCCCCCGCCTCGGGCTCGGCCTCCTTCTCGGGGCCCGCGGGGTCTCCGTCCGAGGTCTCTGCGCCTCGCGCCCGGCTTGCAGCTCCACGCCCGGCGCCCGCTGTCCCCGCTGCGCCCACCTCTCCGGTCTCCGCCCGACGTCCCCGTCTCGGTGGCACGGCCTCGGTCTCGGTGTCGGTGGCTGCCGCCCACGGGCTTTGTCTCTCCTGGCCTGGGGGCCTGGCAGCTCCGCGATTTCGGGCTCTCTTCCCGGGTGCCGTCGTTGTCCGCCTCTCAGCTCGAGCGCCTGTCCGGGTCCGACTCTGCCGGGCCGCGCCTCTGAGCTCCGGGCCGGGGTCCGACCGCTAACCCCGTCCCCGAACCCCTGGCCGGGCTCCTCCGTCTCTCCAGGTTTTCTCTCAGTGTCTCTGTCTCTCTGCCTGGGTATCTCCCAGGTTTCTCTTGTCTCTCCGGTGTCTTGGTCTATCTTTCATCTACAACTGTGTCTCTGGCTTTGCAGCTGTCTCTCCGAGGTTTTCTCTCCGGGCCTCTGTTCCCCAGTGTCTCCGATCTCTCTTTTTCTGCCCTCTGTGTGTGTCTCTTTCGTTCTCTCATCTCTCTATCTCCACTGCTCTCTGTCTCTACCTCTGTCTCGCTGTCTCTTCACCTTTCTTGTCTCCCTCAGGTTTTCTGACTCTGCATCAATGCCTCTCTGTCACTCTCGGATTTTCGTTGTCTCCGTCGTCCCGGGGGTACTCTCTCAGTTAAGTAGCCACGGTCGGTGTCTCTCGCTCTCTTTTTTGCCCATCTCTGGGTCTCCCAGACTCTGCCTCTGTCTCCCTCGTCCCCATCCGATCCCCAGAACGCTTGGGCCCCATTCCACCCGGGGTTCAATGGCATCTCCCCGGCTGGCGAGCTCATCGCGTTTTCTCAGAATCGGGGTTTTGTTCTTAAATGAACGAATCCGGATCAAAGCGCATTTAATCTGACAGTCCCAGATCGGCGGCGGTGGGGGGCCACTCAGGAGGAGCCCCTGGGAGGGTGGGGAGAGGGCGCGGCAGGAGCGCGGACACAGGGCCAGCAAGGGCCCCGCACGCACGGGAGCTGCTCCGGACACATGTGCTGCTGTCGGCTGCTCAGGGCGCTCTCATTGGGGGCCTGCAAAAGGCGTCCTTGACCACCGGCGCTGCAGTGGGGCCCAGGGGCCGGCCCGTAAGCAGGGCGCCGAGGGGCGCGCGGCCGCGGGGACGCAGGACCCACCCCGCCCAGGTCCCCCCGCACCACCAGCGGCCGTCCAGCCCTGCCATGAACCTCTCCTCCTTCCACAG
Seq C2 exon
GCGGACGCCGTGGGCATGGACTATTCGTACGACGAGGACCTGGACGAGCTGTGCCCCGTGTGTGGGGACAAGGTGTCCGGCTACCACTACGGGCTGCTCACATGCGAGAGCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009017:ENSBTAT00000011869:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(32.9=67.6),PF038549=zf-P11=PU(15.4=23.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development